I fitted a Blitz FMIC initially on mine (EP82 GT Auto) and made 144bhp to begin with. That lasted a while so as I could upgrade suspension and brakes then fitted hybrid CT9 (Tongs Malaysia) and made 155bhp at stock boost, the level wasn't reliable due to dips and spikes tbh so I didn't dare run higher boost. Got together a ported manifold, Walbro fuel pump, Blitz decat, Blitz exhaust and Blitz boost controller and started running a solid 1 bar since. Vast difference in fun, would guestimate 170 ish bhp or thereabouts.
As far as management went I ran a JAM FCC to allow me to eliminate the factory safety fuel cut. So long as I checked air/fuel ratios as I went I felt safe enough. This was replaced when I spotted a SARD plug and play ECU on the auctions for a Glanza. The plugs are the same so I figured it would work okay on the GT. Seems good so far, a bit more aggressive than the stock tune and removed speed cut too.
You could possibly get away with a TD04 running a bar although IMO the autobox is a limiting factor. They don't like torque or abuse, both of which a TDo4 will provide. I would echo the words above on K1 and K24 turbos. Much more gradual build of power so it's not so traumatic for the automatic
Fuelling can be taken care of with a FCD and adjustable fuel regulator if you don't mind being crude about it but it's probably worth talking to whoever is tuning the car to see what they are happy to work with. No point fitting an emanage if no-one will tune them!
Link to my auto in case it helps any:
http://www.toyotagtturbo.com/community/index.php?threads/jays-daily-lazymatic-gt.6869/